Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

• Insights from pooled CRISPRi single-cell screens in K562 cells reveal gene functions, regulatory networks, and highlight opportunities and limitations.

  PMID 41826830 · PMC13097927 · BMC genomics · 2026 · 7 claims · 7 setups

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  A modified CROP-seq-CRISPRi protocol allows direct capture of sgRNAs from the cDNA library without a separate enrichment step, improving sgRNA assignment per cell

  k562 lentiviral pooled plasmid amplicon

• Single-Cell Lineage Tracing Uncovers Resistance Signatures and Sensitizing Strategies to FLT3 Inhibitors in Acute Myeloid Leukemia.

  PMID 41270153 · PMC7618455 · Cancer research · 2026 · 8 claims · 8 setups

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  ReSisTrace single-cell lineage tracing identifies pre-resistant and pre-sensitive cell states to FLT3 inhibitors midostaurin and quizartinib in FLT3-ITD-positive MOLM-13 AML cells before treatment

  molm-13 aml-pdx1 single-cell lineage gene

• Single-immunocyte transcriptomics reveal the role of natural killer cell-dependent exogenous antigen presentation in ankylosing spondylitis severity.

  PMID 41593306 · PMC12868835 · Experimental & molecular medicine · 2026 · 8 claims · 8 setups

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  Innate antibacterial defense functions are generally enhanced in most cell types at AS onset and are negatively associated with AS severity

  pbmcs gwas pbmc-derived cd4+ single-cell bulk mendelian

• Integrative single-cell analysis uncovers distinct tumour microenvironment ecotypes and immune evasion across skin cancers.

  PMID 41636115 · PMC12869349 · Clinical and translational medicine · 2026 · 7 claims · 8 setups

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  A malignant NARS2+NDUFC2+ melanoma cell subpopulation with reduced MHC-I expression is enriched in advanced-stage tumours and associated with worse survival and immunotherapy response.

  skin prognosis melanoma macrophage single-cell bulk immunofluorescence

• A high throughput method for genome-wide analysis of retroviral integration.

  PMID 17028098 · PMC1636494 · Nucleic acids research · 2006 · 8 claims · 8 setups

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  VITA uses MmeI to cleave DNA at a fixed distance from its recognition site, generating 21-22 bp genomic tags that serve as signatures of lentiviral integration sites.

  hela ht3 genome chromosomes isf vita sanger

• Autocrine SFRP2 (secreted frizzled related protein 2) enhances lung myofibroblast fibrogenic activity by suppressing PINK1-mediated mitophagy initiation.

  PMID 41789512 · PMC13185440 · Autophagy · 2026 · 7 claims · 8 setups

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  SFRP2 is specifically highly expressed in myofibroblasts derived from fibrotic (IPF/BLM/TGFB1-induced) lung tissue

  lung pmlfs mrc5 single-cell bulk histology

• Chronic Hypoxia Disrupts Spermatogenesis Through ASXL2-EZH2-Mediated Microtubule Destabilization.

  PMID 41782374 · PMC13159132 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  Chronic hypoxia disrupts spermatogenesis by blocking the round-to-elongated spermatid transition, governed by the ASXL2–EZH2 axis

  testes seminiferous sperm including single-cell western transmission

• Clonal dynamics shaped by diverse drug-tolerant persister states in melanoma resistance.

  PMID 41776501 · PMC13162433 · Molecular cancer · 2026 · 8 claims · 6 setups

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  MeRLin, a single-vector high-complexity lineage tracing platform integrating cellular barcoding, scRNA-seq, RNA-FISH, and computational analysis, was developed to track clonal and transcriptional dynamics in a melanoma PDX model

  wm4237-1 nsg bulk scrna-seq clonal

• DHODH links mitochondrial bioenergetics, one-carbon metabolism, and DNA repair to sustain aggressive prostate adenocarcinoma.

  PMID 41612476 · PMC12930642 · Cell communication and signaling : CCS · 2026 · 8 claims · 8 setups

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  DHODH is markedly overexpressed in malignant prostate epithelial cells and abundant in tumors

  tcga-prad gse141445 22rv1 bulk single-cell lentiviral

• Pre-existing cell states predict resistance to multiple treatments.

  PMID 41916275 · PMC13261651 · Cell genomics · 2026 · 8 claims · 5 setups

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  Rare melanoma clones can develop resistance to multiple diverse treatments simultaneously, not just single treatments

  wm989 time-lapse barcode single-cell

• Hypoxia-Induced Osteopontin-Positive Glioma-Associated Macrophages Facilitate Glioma Mesenchymal Transition via NF-κB Pathway Activation.

  PMID 41625475 · PMC12857759 · Cancer communications (London, England) · 2026 · 6 claims · 8 setups

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  A subset of GAMs with elevated OPN expression accumulates in response to hypoxic stimulation

  thp-1 glioma orthotopic gbm bulk single-cell spatial

• Reduced cartilage matrix stiffness in temporomandibular joint osteoarthritis impairs the functions of superficial zone chondrocytes via downregulation of CREB5-PLPP3 signaling.

  PMID 41870835 · PMC13009359 · Molecular biomedicine · 2026 · 7 claims · 8 setups

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  ECM stiffness (Young's modulus) is reduced in the superficial zone of condylar cartilage in TMJOA patients and in a rat UAC-induced TMJOA model

  condylar szc tmjoa nanoindentation single-cell bulk

• Targeting TPX2-dependent lineage plasticity by CDK4/6 inhibition reverses therapy resistance in neuroendocrine bladder carcinoma.

  PMID 41923619 · PMC13130694 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

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  A 315-gene 'NE-like signature' (NE-like Sig), derived from the WGCNA MEmidnightblue module, marks a lineage-plasticity-associated transcriptional program distinct from canonical NE differentiation.

  cases in-house bladder nebc wgcna single-cell spatial

• An engineered tumor organoid model reveals cellular identity and signaling trajectories underlying SFPQ-TFE3 driven translocation RCC.

  PMID 40463960 · PMC12131257 · iScience · 2025 · 8 claims · 7 setups

  Has reproduction · 88

  SFPQ-TFE3 expression is sufficient to transform normal kidney epithelial tubuloids into tRCC

  kidney tubuloids immunodeficient tub rt-qpcr western histology

• ASCL1 promotes nuclear shrinkage in transdifferentiation by suppressing NUP37.

  PMID 41759523 · PMC12985393 · Stem cell reports · 2026 · 7 claims · 8 setups

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  ASCL1-mediated transdifferentiation (AMp) of human fibroblasts to induced neurons causes marked nuclear shrinkage while cell size remains unchanged

  mrc5 ag22056 ipsc-derived embryonic immunofluorescence single-cell rt-qpcr

• Splicing variants in MYRF cause partial loss of function in the retinal pigment epithelium leading to nanophthalmos.

  PMID 41746734 · PMC13043084 · JCI insight · 2026 · 8 claims · 8 setups

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  The dG-MYRF C-terminal frameshift variant undergoes normal homotrimerization, cleavage, and nuclear localization but shows reduced steady-state levels of the C-terminal cleavage product and decreased transcriptional activation of target genes.

  arpe-19 myrf rpe e17.5 immunofluorescence computational cycloheximide

• IFN signaling is associated with radiotherapy response in malignant peripheral nerve sheath tumors.

  PMID 41766654 · PMC12948414 · The Journal of clinical investigation · 2026 · 8 claims · 8 setups

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  MPNST cells are more radioresistant than benign plexiform neurofibroma (pNF) cells in vitro

  mpnst st88-14 nf9511.b jh-2-002 flow fractionated bulk

• A Double-Negative Prostate Cancer Subtype Is Vulnerable to SWI/SNF-Targeting Degrader Molecules.

  PMID 41534092 · PMC13044530 · Cancer research · 2026 · 8 claims · 8 setups

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  SWI/SNF-targeting PROTAC treatment reduces viability of CRPC-WNT (AR-negative) cell lines and organoids, not just AR-dependent CRPC

  prostate nsg formalin-fixed patient-derived viability western xenograft